Literature DB >> 14525004

Dielectric boundary force and its crucial role in gramicidin.

Boaz Nadler1, Uwe Hollerbach, R S Eisenberg.   

Abstract

In an electrostatic problem with nonuniform geometry, a charge Q in one region induces surface charges [called dielectric boundary charges (DBC)] at boundaries between different dielectrics. These induced surface charges, in return, exert a force [called dielectric boundary force (DBF)] on the charge Q that induced them. The DBF is often overlooked. It is not present in standard continuum theories of (point) ions in or near membranes and proteins, such as Gouy-Chapman, Debye-Huckel, Poisson-Boltzmann or Poisson-Nernst- Planck. The DBF is important when a charge Q is near dielectric interfaces, for example, when ions permeate through protein channels embedded in biological membranes. In this paper, we define the DBF and calculate it explicitly for a planar dielectric wall and for a tunnel geometry resembling the ionic channel gramicidin. In general, we formulate the DBF in a form useful for continuum theories, namely, as a solution of a partial differential equation with boundary conditions. The DBF plays a crucial role in the permeation of ions through the gramicidin channel. A positive ion in the channel produces a DBF of opposite sign to that of the fixed charge force (FCF) produced by the permanent charge of the gramicidin polypeptide, and so the net force on the positive ion is reduced. A negative ion creates a DBF of the same sign as the FCF and so the net (repulsive) force on the negative ion is increased. Thus, a positive ion can permeate the channel, while a negative ion is excluded from it. In gramicidin, it is this balance between the FCF and DBF that allows only singly charged positive ions to move into and through the channel. The DBF is not directly responsible, however, for selectivity between the alkali metal ions (e.g., Li+, Na+, K+): we prove that the DBF on a mobile spherical ion is independent of the ion's radius.

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Year:  2003        PMID: 14525004     DOI: 10.1103/PhysRevE.68.021905

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  14 in total

1.  Finite element solution of the steady-state Smoluchowski equation for rate constant calculations.

Authors:  Yuhua Song; Yongjie Zhang; Tongye Shen; Chandrajit L Bajaj; J Andrew McCammon; Nathan A Baker
Journal:  Biophys J       Date:  2004-04       Impact factor: 4.033

2.  Ion permeation through the alpha-hemolysin channel: theoretical studies based on Brownian dynamics and Poisson-Nernst-Plank electrodiffusion theory.

Authors:  Sergei Yu Noskov; Wonpil Im; Benoît Roux
Journal:  Biophys J       Date:  2004-10       Impact factor: 4.033

3.  Influence of protein flexibility on the electrostatic energy landscape in gramicidin A.

Authors:  Ben Corry; Shin-Ho Chung
Journal:  Eur Biophys J       Date:  2004-11-05       Impact factor: 1.733

4.  Computing numerically the access resistance of a pore.

Authors:  Marcel Aguilella-Arzo; Vicente M Aguilella; R S Eisenberg
Journal:  Eur Biophys J       Date:  2005-03-09       Impact factor: 1.733

5.  Ion permeation through a narrow channel: using gramicidin to ascertain all-atom molecular dynamics potential of mean force methodology and biomolecular force fields.

Authors:  Toby W Allen; Olaf S Andersen; Benoit Roux
Journal:  Biophys J       Date:  2006-02-24       Impact factor: 4.033

6.  Steric selectivity in Na channels arising from protein polarization and mobile side chains.

Authors:  Dezso Boda; Wolfgang Nonner; Mónika Valiskó; Douglas Henderson; Bob Eisenberg; Dirk Gillespie
Journal:  Biophys J       Date:  2007-05-25       Impact factor: 4.033

7.  Analyzing the components of the free-energy landscape in a calcium selective ion channel by Widom's particle insertion method.

Authors:  Dezso Boda; Janhavi Giri; Douglas Henderson; Bob Eisenberg; Dirk Gillespie
Journal:  J Chem Phys       Date:  2011-02-07       Impact factor: 3.488

Review 8.  Modeling and simulation of ion channels.

Authors:  Christopher Maffeo; Swati Bhattacharya; Jejoong Yoo; David Wells; Aleksei Aksimentiev
Journal:  Chem Rev       Date:  2012-10-04       Impact factor: 60.622

Review 9.  Interacting ions in biophysics: real is not ideal.

Authors:  Bob Eisenberg
Journal:  Biophys J       Date:  2013-05-07       Impact factor: 4.033

10.  On the importance of atomic fluctuations, protein flexibility, and solvent in ion permeation.

Authors:  Toby W Allen; O S Andersen; Benoit Roux
Journal:  J Gen Physiol       Date:  2004-12       Impact factor: 4.086

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